map_to_func_elem: Functional annotation of significant hotspot residues.

Description Usage Arguments Value Author(s) Examples

Description

This function retrieves Uniprot annotations for th efunctional elements in the proteins with significant hotspots and overlaps and maps the hotspot residues to these.

Usage

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  map_to_func_elem(hotspot_results, write_to_file = "NO", ens_release = "75")

Arguments

hotspot_results

Object containining information about the hotspot residues identified using the function identify_hotspots().

write_to_file

A character vector defining whether the resulting annotated hotspots should be saved in a file (YES or NO).

ens_release

A character vector defining whether the default gene annotations are used, i.e. Ensembl release 75, or if the gene_data correspond to a different Ensembl release. For the current Ensembl version this should be set to: ens_release="www.ensembl.org". For the archive versions to the corresponding archive website.

Value

Updated results file containing an additional columns with the information on the annotated functional and structural region within which the mutation is mapped.

Author(s)

Marija Buljan <[email protected]> Peter Blattmann <[email protected]>

Examples

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data("TestData", package = "DominoEffect")
data("DominoData", package = "DominoEffect")
data("SnpData", package = "DominoEffect")

hotspot_mutations <- identify_hotspots(TestData, DominoData, SnpData)
hotspot_mutations <- map_to_func_elem(hotspot_mutations, 
write_to_file = "NO", ens_release = "75")

head(hotspot_mutations)

peterblattmann/DominoEffect documentation built on June 29, 2019, 10:41 a.m.